About: Phyloevolutionary analysis of SARS-CoV-2 in Nigeria

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An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Phyloevolutionary analysis of SARS-CoV-2 in Nigeria
Creator	Elukunbi, Awoyelu Hilda, Awoyelu Kola, Kola, Oloke Kolawole, Elijah Kolawole, Oladipo Monisola, Oyawoye Oloke, Julius Olufemi, Adetuyi Oyawoye, Olubukola Senbadejo, Yetunde Yetunde, Senbadejo
Source	Elsevier; Medline; PMC
abstract	Abstract Background Phyloepidemiologic approaches have given specific insight to understanding emergence and evolution of infection. Knowledge on the outbreak and spread of SARS-CoV-2 in Nigeria would assist in providing preventive measures to reduce transmission among populations at risk. Therefore, this study aimed at investigating the evolution of SARS-CoV-2 in Nigeria. Materials and Method A total of 39 complete genomes of SARS-CoV-2 were retrieved from the GISAID EpiFluTM database on March 29th 2020 to investigate its evolution in Nigeria. Sequences were selected based on the travel history of the patient and the collection date. Other sequences were not selected because they were short, contained artefacts, not from original source or had insufficient information. Evolutionary history was inferred using Maximum Likelihood method based on the General Time Reversible model. Phylogenetic tree was constructed to determine the common ancestor of each strain. Results The phylogenetic analysis showed the strain in Nigeria clustered in a monophyletic clade with a Wuhan sublineage. Nucleotide alignment also showed a 100% similarity indicating a common origin of evolution. Comparative analysis showed 27,972 (93.6%) identical sites and 97.6% pairwise identity with the consensus. Conclusion The study evidently showed the entire outbreak of COVID-19 infection in Nigeria stemmed from a single introduction sharing consensus similarity with the reference SARS-CoV-2 human genome from Wuhan. Preventive measures that can limit the spread of the infection among populations at risk should be implemented.
has issue date	2020-06-14(xsd:dateTime)
bibo:doi	10.1016/j.nmni.2020.100717
bibo:pmid	32566234
has license	els-covid
sha1sum (hex)	e1fb16119377d1672a2c887e47404ccca4d094fd
schema:url	https://doi.org/10.1016/j.nmni.2020.100717
resource representing a document's title	Phyloevolutionary analysis of SARS-CoV-2 in Nigeria
has PubMed Central identifier	PMC7293838
has PubMed identifier	32566234
schema:publication	New Microbes New Infect
resource representing a document's body	covid:e1fb16119377d1672a2c887e47404ccca4d094fd#body_text
is schema:about of	named entity 'Nigeria' named entity 'SARS-CoV-2' named entity 'Knowledge' named entity 'SARS-CoV-2' named entity 'EVOLUTION' covid:arg/e1fb16119377d1672a2c887e47404ccca4d094fd named entity 'measures' named entity 'populations' named entity 'evolution' named entity 'infection' named entity 'Nigeria' named entity 'Nigeria' named entity 'outbreak and spread' named entity 'Wuhan' named entity 'Nigeria Centre for Disease Control' named entity 'WHO' named entity 'Wuhan' named entity 'evolution' named entity 'SARS-CoV-2' named entity 'Maximum Likelihood' named entity 'sequence data' named entity 'France' named entity 'Ewekoro' named entity 'muscle' named entity 'Wuhan' named entity 'Nigeria' named entity 'allele' named entity 'infection' named entity 'Codon' named entity 'Avise' named entity 'virus' named entity 'Italian' named entity 'COVID' named entity 'genetic information' named entity 'spread of the disease' named entity 'SARS-CoV-2' named entity 'SARS-CoV-2' named entity 'missing data' named entity 'human genome' named entity 'preventive measures' named entity 'virus' named entity 'multiple sequence alignment' named entity 'Nigeria' named entity 'allele' named entity 'clade' named entity 'GISAID' named entity 'sequence data' named entity 'Composite Likelihood' named entity 'host-pathogen' named entity 'pathogens' named entity 'Nigeria' named entity 'public health' named entity 'Wuhan' named entity 'SARS-CoV-2' named entity 'Multiple sequence alignment' named entity 'Ogun State' named entity 'SARS-CoV-2' named entity 'evolution' named entity 'SARS-CoV-2' named entity 'Italian' named entity 'virus' named entity 'Folarin' named entity 'virus' named entity 'Nigerian' named entity 'Nigeria' named entity 'SARS-CoV-2' named entity 'statistical analysis' named entity 'MSA' named entity 'diagnostic tests' named entity 'lockdown'

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